Research Article
Stability Analysis of Biological Network Topologies during Stochastic Simulation
@INPROCEEDINGS{10.4108/icst.simutools.2011.245590, author={Davide Prandi and Tommaso Mazza}, title={Stability Analysis of Biological Network Topologies during Stochastic Simulation}, proceedings={4th International ICST Conference on Simulation Tools and Techniques}, publisher={ICST}, proceedings_a={SIMUTOOLS}, year={2012}, month={4}, keywords={Graph algorithms Monte Carlo Biology and genetics}, doi={10.4108/icst.simutools.2011.245590} }- Davide Prandi
Tommaso Mazza
Year: 2012
Stability Analysis of Biological Network Topologies during Stochastic Simulation
SIMUTOOLS
ICST
DOI: 10.4108/icst.simutools.2011.245590
Abstract
Recent advances in the stochastic simulation of biological systems have exploited the weighted dependency di-graph as a compact representation of the computational workload. It was largely used to represent the causal relationships among reactions and then to determine their cause-e ect implica- tions. Although critical for several applications, the topol- ogy of the dependency graph has been little studied so far. Here, we make use of some network topology indices to de- tect and characterize the important reactions of two real case studies. We measure the stability of such indices over time and make a case for considering them in parallel stochastic simulation.
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